Skip to main content
SpringerLink
Log in

Substrate Patterning and Activation Strategies for DNA Chip Fabrication

  • Chapter
  • First Online:
Immobilisation of DNA on Chips I

Part of the book series: Topics in Current Chemistry ((TOPCURRCHEM,volume 260))

Abstract

The immobilization of nucleic acids onto substrates in array fabrication is a complex process involving three major steps: (i) the chemical modification of the arrayed material in such a fashion that it can interact with complementary functionalities present on the substrate to form a stable bond; (ii) the coating of the support surface with adequate functional groups to allow specific binding and prevent nonspecific adsorption of the material to be arrayed; and (iii) the use of a delivery system that brings small quantities of the arrayed material to specific positions on the surface. Different types of nucleic acids or their analogues (cDNA, oligonucleotides or peptide nucleic acids), supports (silica, gold, polymeric membranes and gels), surface activation chemistries (organosilanes, thiols) and patterning tools can be used for these purposes and will be described in this review.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Hitt E (2004) Scientist 18:38

    Google Scholar 

  2. Holloway AJ, van Laar RK, Tothill RW, Bowtell DDL (2002) Nat Gen 32:481

    CAS  Google Scholar 

  3. Stears RL, Martinsky T, Schena M (2003) Nature Medicine 9:140

    CAS  Google Scholar 

  4. Wheatley JB, Lyttle MH, Hocker MD, Schmidt DE (1996) J Chromatography A 726:77

    Article  CAS  Google Scholar 

  5. Skrzypczynski Z, Wayland S (2004) Biocon Chem 15:583

    CAS  Google Scholar 

  6. Skrzypczynski Z, Wayland S (2003) Biocon Chem 14:642

    CAS  Google Scholar 

  7. Rogers YH, Jiang-Baucom P, Huang ZJ, Bogdanov V, Anderson S, Boyce-Jacino MT (1999) Anal Biochem 266:23

    Article  CAS  Google Scholar 

  8. Charles PT, Vora GJ, Andreadis JD, Fortney AJ, Meador CE, Dulcey CS, Stenger DA (2003) Langmuir 19:1586

    Article  CAS  Google Scholar 

  9. Defrancq E, Hoang A, Vinet F, Dumy P (2003) Bioorg Med Chem Lett 13:2683

    Article  CAS  Google Scholar 

  10. Boncheva M, Scheibler L, Lincoln P, Vogel H, Akerman B (1999) Langmuir 15:4317

    Article  CAS  Google Scholar 

  11. Fang SY, Bergstrom DE (2003) Biocon Chem 14:80

    CAS  Google Scholar 

  12. Guzaev A, Lonnberg H (1999) Tetrahedron 55:9101

    Article  CAS  Google Scholar 

  13. Brown R, Smith WE, Graham D (2001) Tetrahedron Lett 42:2197

    CAS  Google Scholar 

  14. Kumar A, Larsson O, Parodi D, Liang Z (2000) Nucleic Acid Res 28:e71

    CAS  Google Scholar 

  15. Kumar A, Liang Z (2001) Nucleic Acid Res 29:e2

    CAS  Google Scholar 

  16. Maier MA, Yannopoulos CG, Mohamed N, Roland A, Fritz H, Mohan V, Just G, Manoharan M (2003) Biocon Chem 14:18

    CAS  Google Scholar 

  17. Safinya CR (2001) Curr Opin Struc Biol 11:440

    CAS  Google Scholar 

  18. Shchepinov MS, CaseGreen SC, Southern EM (1997) Nucleic Acid Res 25:1155

    CAS  Google Scholar 

  19. Guo Z, Guilfoyle RA, Thiel AJ, Wang R, Smith LM (1994) Nucleic Acid Res 22:5456

    CAS  Google Scholar 

  20. Chou CC, Chen CH, Lee TT, Konan P (2004) Nucleic Acid Res 32:e99

    Google Scholar 

  21. Bruce IJ, Taylor J, Todd M, Davies MJ, Borioni E, Sangregorio C, Sen T (2004) J Magn Magn Mat 284:145–160

    Article  CAS  Google Scholar 

  22. Petrovykh DY, Kimura-Suda H, Tarlov MJ, Whitman LJ (2004) Langmuir 20:429

    Article  CAS  Google Scholar 

  23. Kimura-Suda H, Petrovykh DY, Tarlov MJ, Whitman LJ (2003) J Am Chem Soc 125:9014

    Article  CAS  Google Scholar 

  24. Wolf LK, Gao Y, Georgiadis RM (2004) Langmuir 20:3357

    CAS  Google Scholar 

  25. Brandt O, Feldner J, Stephan A, Schroder M, Schnolzer M, Arlinghaus HF, Hoheisel JD, Jacob A (2003) Nucleic Acid Res 31

    Google Scholar 

  26. Matysiak S, Hauser NC, Wurtz S, Hoheisel JD (1999) Nucleosid Nucleotid 18:1289

    CAS  Google Scholar 

  27. Strother T, Cai W, Zhao XS, Hamers RJ, Smith LM (2000) J Am Chem Soc 122:1205

    Article  CAS  Google Scholar 

  28. Southern E, Mir K, Shchepinov M (1999) Nat Gen 21:5

    CAS  Google Scholar 

  29. Cheung VG, Morley M, Aguilar F, Massimi A, Kucherlapati R, Childs G (1999) Nat Gen 21:15

    CAS  Google Scholar 

  30. Frey BL, Corn RM (1996) Anal Chem 68:3187

    CAS  Google Scholar 

  31. Beaucage SL (2001) Curr Med Chem 8:1213

    CAS  Google Scholar 

  32. Consolandi C, Castiglioni B, Bordoni R, Busti E, Battaglia C, Bernardi LR, De Bellis G (2002) Nucleosid Nucleotid Nucleic Acids 21:561

    CAS  Google Scholar 

  33. Chu SK, Hsu M, Ku WC, Tu CY, Tseng YT, Lau WK, Yan RY, Ma JT, Tzeng CM (2003) Biochem J 374:625

    Google Scholar 

  34. Sen T, Bruce IJ (2005) Langmuir 21:7029–7035

    Google Scholar 

  35. Pirrung MC (2002) Angew Chem-Int Edn 41:1277

    Google Scholar 

  36. Oh SJ, Cho SJ, Kim CO, Park JW (2002) Langmuir 18:1764

    CAS  Google Scholar 

  37. Halliwell CM, Cass AEG (2001) Anal Chem 73:2476

    Article  CAS  Google Scholar 

  38. Beier M, Hoheisel JD (1999) Nucleic Acid Res 27:1970

    CAS  Google Scholar 

  39. Dolan PL, Wu Y, Ista LK, Metzenberg RL, Nelson MA, Lopez GA (2001) Nucleic Acid Res 29:e107

    CAS  Google Scholar 

  40. Benters R, Niemeyer CM, Wohrle D (2001) Chembiochem 2:686

    Article  CAS  Google Scholar 

  41. Trevisiol E, Le Berre-Anton V, Leclaire J, Pratviel G, Caminade AM, Majoral JP, Francois JM, Meunier B (2003) New J Chem 27:1713

    CAS  Google Scholar 

  42. Le Berre V, Trevisiol E, Dagkessamanskaia A, Sokol S, Caminade AM, Majoral JP, Meunier B, Francois J (2003) Nucleic Acid Res 31:e88

    Google Scholar 

  43. Glazer M, Fidanza J, McGall G, Frank C (2001) Chem Mater 13:4773

    Article  CAS  Google Scholar 

  44. Lin Z, Strother T, Cai W, Cao XP, Smith LM, Hamers RJ (2002) Langmuir 18:788

    CAS  Google Scholar 

  45. Strother T, Hamers RJ, Smith LM (2000) Nucleic Acid Res 28:3535

    CAS  Google Scholar 

  46. Schouten S, Stroeve P, Longo ML (1999) Langmuir 15:8133

    Article  CAS  Google Scholar 

  47. Peterson AW, Heaton RJ, Georgiadis RM (2001) Nucleic Acid Res 29:5163

    CAS  Google Scholar 

  48. Aqua T, Naaman R, Daube SS (2003) Langmuir 19:10 573

    Article  CAS  Google Scholar 

  49. Bamdad C (1998) Biophys J 75:1997

    CAS  Google Scholar 

  50. Wang Y, Vaidya B, Farquar HD, Stryjewski W, Hammer RP, McCarley RL, Soper SA, Cheng YW, Barany F (2003) Anal Chem 75:1130

    CAS  Google Scholar 

  51. Shamansky LM, Davis CB, Stuart JK, Kuhr WG (2001) Talanta 55:909

    Article  CAS  Google Scholar 

  52. Liu DJ, Perdue RK, Sun L, Crooks RM (2004) Langmuir 20:5905

    CAS  Google Scholar 

  53. Livache T, Bazin H, Mathis G (1998) Clin Chim Act 278:171

    Article  CAS  Google Scholar 

  54. Livache T, Guedon P, Brakha C, Roget A, Levy Y, Bidan G (2001) Synt Met 121:1443

    CAS  Google Scholar 

  55. Livache T, Maillart E, Lassalle N, Mailley P, Corso B, Guedon P, Roget A, Levy Y (2003) J Pharm Biomed Anal 32:687

    Article  CAS  Google Scholar 

  56. Matson RS, Rampal J, Pentoney SL, Anderson PD, Coassin P (1995) Anal Biochem 224:110

    Article  CAS  Google Scholar 

  57. Matson RS, Rampal JB, Coassin PJ (1994) Anal Biochem 217:306

    Article  CAS  Google Scholar 

  58. Matson RS, Rampal JB, Coassin PJ (1994) Anal Biochem 220:225

    Article  CAS  Google Scholar 

  59. Timofeev EN, Kochetkova SV, Mirzabekov AD, Florentiev VL (1996) Nucleic Acid Res 24:3142

    CAS  Google Scholar 

  60. Proudnikov D, Timofeev E, Mirzabekov A (1998) Anal Biochem 259:34

    Article  CAS  Google Scholar 

  61. Yi HM, Wu LQ, Sumner JJ, Gillespie JB, Payne GF, Bentley WE (2003) Biotech Bioeng 83:646

    Article  CAS  Google Scholar 

  62. Fuentes M, Mateo C, Garcia L, Tercero JC, Guisan JM, Fernandez-Lafuente R (2004) Biomacromol 5:883

    CAS  Google Scholar 

  63. Epstein JR, Leung APK, Lee KH, Walt DR (2003) Biosens Bioelectr 18:541

    CAS  Google Scholar 

  64. Battersby BJ, Trau M (2002) Trends Biotech 20:167

    CAS  Google Scholar 

  65. Lam KS, Renil M (2002) Curr Opin Chem Biol 6:353

    Article  CAS  Google Scholar 

  66. McGall G, Labadie J, Brock P, Wallraff G, Nguyen T, Hinsberg W (1996) Proc Nat Acad Sci USA 93:13 555

    Article  Google Scholar 

  67. Pirrung MC, Fallon L, McGall G (1998) J Org Chem 63:241

    Article  CAS  Google Scholar 

  68. Lipshutz RJ, Fodor SPA, Gingeras TR, Lockhart DJ (1999) Nat Gen 21:20

    CAS  Google Scholar 

  69. Saluz HP, Iqbal J, Limmon GV, Ruryk A, Wu ZH (2002) Curr Sci 83:829

    CAS  Google Scholar 

  70. Singh-Gasson S, Green RD, Yue Y, Nelson C, Blattner F, Sussman MR, Cerrina F (1999) Nat Biotech 17:974

    Article  CAS  Google Scholar 

  71. Matysiak S, Reuthner F, Hoheisel JD (2001) Biotechniques 31:896

    CAS  Google Scholar 

  72. Frank R (1992) Tetrahedron 48:9217

    Article  CAS  Google Scholar 

  73. Hughes TR, Mao M, Jones AR, Burchard J, Marton MJ, Shannon KW, Lefkowitz SM, Ziman M, Schelter JM, Meyer MR, Kobayashi S, Davis C, Dai HY, He YDD, Stephaniants SB, Cavet G, Walker WL, West A, Coffey E, Shoemaker DD, Stoughton R, Blanchard AP, Friend SH, Linsley PS (2001) Nat Biotech 19:342

    Article  CAS  Google Scholar 

  74. Blanchard AP, Kaiser RJ, Hood LE (1996) Biosens Bioelectr 11:687

    CAS  Google Scholar 

  75. Maskos U, Southern EM (1993) Nucleic Acid Res 21:2267

    CAS  Google Scholar 

  76. Maskos U, Southern EM (1993) Nucleic Acid Res 21:4663

    CAS  Google Scholar 

  77. Southern EM, Maskos U, Elder JK (1992) Genomics 13:1008

    Article  CAS  Google Scholar 

  78. de Gans BJ, Schubert US (2003) Macromol Rapid Commun 24:659

    Google Scholar 

  79. Lange SA, Benes V, Kern DP, Horber JKH, Bernard A (2004) Anal Chem 76:1641

    Article  CAS  Google Scholar 

  80. Demers LM, Ginger DS, Park SJ, Li Z, Chung SW, Mirkin CA (2002) Science 296:1836

    Article  CAS  Google Scholar 

  81. Xu S, Liu GY (1997) Langmuir 13:127

    Google Scholar 

  82. Wadu-Mesthrige K, Xu S, Amro NA, Liu GY (1999) Langmuir 15:8580

    Article  CAS  Google Scholar 

  83. Amro NA, Xu S, Liu GY (2000) Langmuir 16:3006

    CAS  Google Scholar 

  84. Delamarche E, Hoole ACF, Michel B, Wilkes S, Despont M, Welland ME, Biebuyck H (1997) J Phys Chem B 101:9263

    Article  CAS  Google Scholar 

  85. Schwartz PV (2001) Langmuir 17:5971

    Article  CAS  Google Scholar 

  86. Chrisey LA, Oferrall CE, Spargo BJ, Dulcey CS, Calvert JM (1996) Nucleic Acid Res 24:3040

    CAS  Google Scholar 

  87. Blanchard AP, Kaiser RJ, Hood LE (1996) Biosens Bioelectr 11:687

    CAS  Google Scholar 

  88. Gillmor SD, Thiel AJ, Strother TC, Smith LM, Lagally MG (2000) Langmuir 16:7223

    Article  CAS  Google Scholar 

  89. Zammatteo N, Jeanmart L, Hamels S, Courtois S, Louette P, Hevesi L, Remacle J (2000) Anal Biochem 280:143

    Article  CAS  Google Scholar 

  90. Lindroos K, Liljedahl U, Raitio M, Syvanen AC (2001) Nucleic Acid Res 29:e69

    CAS  Google Scholar 

  91. Walsh MK, Wang XW, Weimer BC (2001) J Biochem Biophys Met 47:221

    CAS  Google Scholar 

  92. Taylor S, Smith S, Windle B, Guiseppi-Elie A (2003) Nucleic Acid Res 31

    Google Scholar 

  93. Manning M, Harvey S, Galvin P, Redmond G (2003) Mater Sci Eng C-Bio S 23:347

    Google Scholar 

Download references

Acknowledgments

The authors wish to acknowledge the European Union for support from Framework Program 5 and specially the CHEMAG RTD project (G5RTD-CT-2001-00534).

Author information

Authors and Affiliations

  1. Max-Planck Institut für Metallforschung, Heisenbergstraße 3, 70569 , Stuttgart, Germany

    Aránzazu del Campo

  2. Department of BiosciencesUniversity of Kent, Canterbury, CT2 7NJ, Kent, UK

    Ian J. Bruce

Authors
  1. Aránzazu del Campo
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Ian J. Bruce
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Ian J. Bruce .

Editor information

Christine Wittmann

Rights and permissions

Reprints and permissions

About this chapter

Cite this chapter

del Campo, A., Bruce, I.J. Substrate Patterning and Activation Strategies for DNA Chip Fabrication. In: Wittmann, C. (eds) Immobilisation of DNA on Chips I. Topics in Current Chemistry, vol 260. Springer, Berlin, Heidelberg. https://doi.org/10.1007/b137073

Download citation

Publish with us

Policies and ethics

Search

Navigation